Alfalfa Gene Editing Database
Alfalfa Gene Editing Database
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0454720 | XP_003600264.2 | 94.872 | 195 | 8 | 1 | 1 | 195 | 64 | 256 | 2.39e-129 | 384 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0454720 | sp|Q9SJ41|C3H18_ARATH | 52.586 | 116 | 50 | 4 | 84 | 195 | 143 | 257 | 8.40e-32 | 123 |
| Query id | Subject id | identity % | alignment length | mis matches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0454720 | G7J214 | 94.872 | 195 | 8 | 1 | 1 | 195 | 64 | 256 | 1.14e-129 | 384 |
| Gene ID | Type | Classification |
|---|---|---|
| Msa0454720 | TF | C3H |
| Gene ID | Type | Classification |
|---|
Co-expression Network
| Gene1 | Gene2 | correlation coefficient | p_value | FDR |
|---|
PPI
| Gene1 | Gene2 | Type |
|---|
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0454720 | MtrunA17_Chr3g0101151 | 94.872 | 195 | 8 | 1 | 1 | 195 | 64 | 256 | 2.20e-133 | 384 |
| Msa0454720 | MtrunA17_Chr5g0445571 | 54.359 | 195 | 73 | 7 | 12 | 195 | 90 | 279 | 1.62e-55 | 184 |
| Query id | Subject id | identity % | alignment length | mismatches | gap openings | q. start | q. end | s. start | s. end | e-value | bit score |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Msa0454720 | AT2G05160.2 | 52.586 | 116 | 50 | 4 | 84 | 195 | 143 | 257 | 8.54e-33 | 123 |
| Msa0454720 | AT2G05160.1 | 52.586 | 116 | 50 | 4 | 84 | 195 | 143 | 257 | 8.54e-33 | 123 |
| Msa0454720 | AT2G05160.3 | 54.545 | 110 | 45 | 4 | 90 | 195 | 149 | 257 | 9.17e-33 | 122 |
| Msa0454720 | AT3G52980.1 | 40.141 | 142 | 52 | 3 | 69 | 195 | 122 | 245 | 4.28e-28 | 108 |
Find 33 sgRNAs with CRISPR-Local
Find 35 sgRNAs with CRISPR-GE
CRISPR-Local
| sgRNA_sequence | on_target_score | Position | Region |
|---|---|---|---|
| TGAACGGAAAATTCGGTAAA+AGG | 0.184932 | 3_3:-46455853 | Msa0454720:CDS |
| AGTATTGTCATGATTGTAAT+AGG | 0.235285 | 3_3:+46456039 | None:intergenic |
| ACTTGCCGGCGAAGAATTTC+CGG | 0.247410 | 3_3:+46456078 | None:intergenic |
| GTGCCTATTGTCATAAATTC+TGG | 0.337800 | 3_3:+46456013 | None:intergenic |
| GCCAATTTGAACGGAAAATT+CGG | 0.350894 | 3_3:-46455860 | Msa0454720:CDS |
| GTACTATGATAAGTATAAAA+AGG | 0.359168 | 3_3:-46455573 | Msa0454720:CDS |
| CGAACCGAACAATGCAGTTC+GGG | 0.360341 | 3_3:+46455976 | None:intergenic |
| GGAAGTGAAGCAATTGATAT+AGG | 0.377638 | 3_3:+46455602 | None:intergenic |
| GACATAGTCTCTGGTATGTA+TGG | 0.401422 | 3_3:-46455722 | Msa0454720:CDS |
| ATTTCAGCAAAGGATATTGC+AGG | 0.419277 | 3_3:-46455790 | Msa0454720:CDS |
| GACGAACAAGCGATGTCGCC+TGG | 0.435445 | 3_3:-46455680 | Msa0454720:CDS |
| TCTAGTTGCGCCAGTGATCC+AGG | 0.441853 | 3_3:+46455662 | None:intergenic |
| AGTCCAGAATTTATGACAAT+AGG | 0.443283 | 3_3:-46456016 | Msa0454720:CDS |
| AGCGATGTCGCCTGGATCAC+TGG | 0.443823 | 3_3:-46455672 | Msa0454720:CDS |
| GCAGGCATGGAAATAGTTGT+AGG | 0.444946 | 3_3:-46455772 | Msa0454720:CDS |
| CCGAACCGAACAATGCAGTT+CGG | 0.457215 | 3_3:+46455975 | None:intergenic |
| GAGTGAACCTGAAAACTTGC+CGG | 0.457349 | 3_3:+46456064 | None:intergenic |
| ATCAATTGCTTCACTTCCAA+TGG | 0.489292 | 3_3:-46455597 | Msa0454720:CDS |
| TACTTATCATAGTACGCCAT+TGG | 0.489743 | 3_3:+46455581 | None:intergenic |
| CAAACCCGAACTGCATTGTT+CGG | 0.496419 | 3_3:-46455980 | Msa0454720:CDS |
| GTATTGTCATGATTGTAATA+GGG | 0.498266 | 3_3:+46456040 | None:intergenic |
| AGCAAAGGATATTGCAGGCA+TGG | 0.511519 | 3_3:-46455785 | Msa0454720:CDS |
| CCGAACTGCATTGTTCGGTT+CGG | 0.517240 | 3_3:-46455975 | Msa0454720:CDS |
| ACTAGATCGGTAATCTCGTC+CGG | 0.521310 | 3_3:-46456097 | Msa0454720:CDS |
| GCTGTTTCTGACATAGTCTC+TGG | 0.523353 | 3_3:-46455731 | Msa0454720:CDS |
| AGTTGTAGGTTCTATCATCA+TGG | 0.533176 | 3_3:-46455758 | Msa0454720:CDS |
| TCAAAAGATGGCTACTAGAT+CGG | 0.533471 | 3_3:-46456110 | None:intergenic |
| GTCGAGCTCTTAAAACAAAG+AGG | 0.587007 | 3_3:-46455629 | Msa0454720:CDS |
| CTCGTCCGGAAATTCTTCGC+CGG | 0.593097 | 3_3:-46456083 | Msa0454720:CDS |
| ACATGTCACTATTTCAGCAA+AGG | 0.593665 | 3_3:-46455800 | Msa0454720:CDS |
| AGTTCGGGTTTGATGTTCAG+CGG | 0.616303 | 3_3:+46455991 | None:intergenic |
| TCAGCTGTAGCCAATTTGAA+CGG | 0.619148 | 3_3:-46455869 | Msa0454720:CDS |
| CATGTCGTTAGCTCTCAGCT+AGG | 0.655861 | 3_3:+46455531 | None:intergenic |
CRISPR-GE
| badsite warning | sgRNA_sequence | Strand | Position | Region | GC_content |
|---|---|---|---|---|---|
| !! | GTACTATGATAAGTATAAAA+AGG | - | chr3_3:46456068-46456087 | Msa0454720:CDS | 20.0% |
| ! | GTATTGTCATGATTGTAATA+GGG | + | chr3_3:46455604-46455623 | None:intergenic | 25.0% |
| ! | AGTATTGTCATGATTGTAAT+AGG | + | chr3_3:46455605-46455624 | None:intergenic | 25.0% |
| !!! | AAATAGTGACATGTTTTGAA+TGG | + | chr3_3:46455835-46455854 | None:intergenic | 25.0% |
| AGTCCAGAATTTATGACAAT+AGG | - | chr3_3:46455625-46455644 | Msa0454720:CDS | 30.0% | |
| GTGCCTATTGTCATAAATTC+TGG | + | chr3_3:46455631-46455650 | None:intergenic | 35.0% | |
| GCCAATTTGAACGGAAAATT+CGG | - | chr3_3:46455781-46455800 | Msa0454720:CDS | 35.0% | |
| ! | ACCGAATTTTCCGTTCAAAT+TGG | + | chr3_3:46455785-46455804 | None:intergenic | 35.0% |
| TGAACGGAAAATTCGGTAAA+AGG | - | chr3_3:46455788-46455807 | Msa0454720:CDS | 35.0% | |
| ACATGTCACTATTTCAGCAA+AGG | - | chr3_3:46455841-46455860 | Msa0454720:CDS | 35.0% | |
| ATTTCAGCAAAGGATATTGC+AGG | - | chr3_3:46455851-46455870 | Msa0454720:CDS | 35.0% | |
| AGTTGTAGGTTCTATCATCA+TGG | - | chr3_3:46455883-46455902 | Msa0454720:CDS | 35.0% | |
| GGAAGTGAAGCAATTGATAT+AGG | + | chr3_3:46456042-46456061 | None:intergenic | 35.0% | |
| ATCAATTGCTTCACTTCCAA+TGG | - | chr3_3:46456044-46456063 | Msa0454720:CDS | 35.0% | |
| TACTTATCATAGTACGCCAT+TGG | + | chr3_3:46456063-46456082 | None:intergenic | 35.0% | |
| !! | AAAAAGGTGTTACAAGCAGA+AGG | - | chr3_3:46456084-46456103 | Msa0454720:CDS | 35.0% |
| TCAGCTGTAGCCAATTTGAA+CGG | - | chr3_3:46455772-46455791 | Msa0454720:CDS | 40.0% | |
| GACATAGTCTCTGGTATGTA+TGG | - | chr3_3:46455919-46455938 | Msa0454720:CDS | 40.0% | |
| GTCGAGCTCTTAAAACAAAG+AGG | - | chr3_3:46456012-46456031 | Msa0454720:CDS | 40.0% | |
| ACTAGATCGGTAATCTCGTC+CGG | - | chr3_3:46455544-46455563 | Msa0454720:CDS | 45.0% | |
| GAGTGAACCTGAAAACTTGC+CGG | + | chr3_3:46455580-46455599 | None:intergenic | 45.0% | |
| ! | AGTTCGGGTTTGATGTTCAG+CGG | + | chr3_3:46455653-46455672 | None:intergenic | 45.0% |
| CAAACCCGAACTGCATTGTT+CGG | - | chr3_3:46455661-46455680 | Msa0454720:CDS | 45.0% | |
| AGCAAAGGATATTGCAGGCA+TGG | - | chr3_3:46455856-46455875 | Msa0454720:CDS | 45.0% | |
| GCAGGCATGGAAATAGTTGT+AGG | - | chr3_3:46455869-46455888 | Msa0454720:CDS | 45.0% | |
| !! | GCTGTTTCTGACATAGTCTC+TGG | - | chr3_3:46455910-46455929 | Msa0454720:CDS | 45.0% |
| ACTTGCCGGCGAAGAATTTC+CGG | + | chr3_3:46455566-46455585 | None:intergenic | 50.0% | |
| ! | TTCTTCGCCGGCAAGTTTTC+AGG | - | chr3_3:46455570-46455589 | Msa0454720:CDS | 50.0% |
| CGAACCGAACAATGCAGTTC+GGG | + | chr3_3:46455668-46455687 | None:intergenic | 50.0% | |
| CCGAACCGAACAATGCAGTT+CGG | + | chr3_3:46455669-46455688 | None:intergenic | 50.0% | |
| CCGAACTGCATTGTTCGGTT+CGG | - | chr3_3:46455666-46455685 | Msa0454720:CDS | 50.0% | |
| CTCGTCCGGAAATTCTTCGC+CGG | - | chr3_3:46455558-46455577 | Msa0454720:CDS | 55.0% | |
| TCTAGTTGCGCCAGTGATCC+AGG | + | chr3_3:46455982-46456001 | None:intergenic | 55.0% | |
| GACGAACAAGCGATGTCGCC+TGG | - | chr3_3:46455961-46455980 | Msa0454720:CDS | 60.0% | |
| AGCGATGTCGCCTGGATCAC+TGG | - | chr3_3:46455969-46455988 | Msa0454720:CDS | 60.0% |
| Chromosome | Type | Strat | End | Strand | Name |
|---|---|---|---|---|---|
| chr3_3 | gene | 46455538 | 46456125 | 46455538 | ID=Msa0454720;Name=Msa0454720 |
| chr3_3 | mRNA | 46455538 | 46456125 | 46455538 | ID=Msa0454720-mRNA-1;Parent=Msa0454720;Name=Msa0454720-mRNA-1;_AED=0.19;_eAED=0.19;_QI=0|-1|0|1|-1|1|1|0|195 |
| chr3_3 | exon | 46455538 | 46456125 | 46455538 | ID=Msa0454720-mRNA-1:exon:8643;Parent=Msa0454720-mRNA-1 |
| chr3_3 | CDS | 46455538 | 46456125 | 46455538 | ID=Msa0454720-mRNA-1:cds;Parent=Msa0454720-mRNA-1 |
| Gene Sequence |
| Protein sequence |
